AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031551

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031551 MtrunA17_Chr6g0469431 95.595 227 10 0 1 227 1 227 1.61e-160 446
MsaG031551 MtrunA17_Chr8g0348391 57.098 317 112 6 1 293 1 317 7.86e-113 329
MsaG031551 MtrunA17_Chr1g0181771 50.545 275 129 3 32 304 28 297 1.17e-84 256
MsaG031551 MtrunA17_Chr6g0469441 100.000 57 0 0 218 274 23 79 2.93e-34 120
MsaG031551 MtrunA17_Chr7g0276421 53.509 114 43 2 28 131 4 117 3.26e-25 105
MsaG031551 MtrunA17_Chr6g0481061 51.923 104 40 3 39 134 46 147 4.85e-24 101
MsaG031551 MtrunA17_Chr3g0109791 53.922 102 39 1 30 123 37 138 3.70e-23 97.8
MsaG031551 MtrunA17_Chr5g0433851 57.732 97 33 2 35 123 28 124 4.59e-23 98.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031551 AT5G52660.2 57.357 333 99 7 1 296 1 327 2.93e-116 338
MsaG031551 AT5G52660.1 57.530 332 99 7 1 296 1 326 7.09e-116 337
MsaG031551 AT4G01280.1 56.436 303 103 9 1 281 1 296 4.93e-102 301
MsaG031551 AT4G01280.2 56.250 304 103 9 1 281 1 297 6.77e-102 301
MsaG031551 AT1G01520.1 52.397 292 110 5 7 281 5 284 3.22e-96 286
MsaG031551 AT1G01520.3 52.465 284 106 5 7 273 5 276 9.15e-93 277
MsaG031551 AT3G09600.1 51.786 280 112 3 15 282 8 276 5.42e-88 265
MsaG031551 AT3G09600.7 51.786 280 112 3 15 282 8 276 5.42e-88 265
MsaG031551 AT3G09600.2 52.593 270 105 3 15 272 8 266 7.70e-86 259
MsaG031551 AT3G09600.6 52.593 270 105 3 15 272 8 266 7.70e-86 259
MsaG031551 AT3G09600.4 52.593 270 105 3 15 272 8 266 9.17e-86 259
MsaG031551 AT5G02840.3 52.308 260 105 5 33 280 31 283 3.21e-83 253
MsaG031551 AT5G02840.1 53.571 252 98 5 33 272 31 275 2.43e-82 251
MsaG031551 AT5G02840.2 53.571 252 98 5 33 272 31 275 2.43e-82 251
MsaG031551 AT1G01520.2 51.128 266 101 5 7 255 5 258 1.17e-81 248
MsaG031551 AT1G01520.4 51.128 266 101 5 7 255 5 258 1.17e-81 248
MsaG031551 AT5G02840.4 51.915 235 94 5 33 255 31 258 4.78e-71 221
MsaG031551 AT5G02840.5 51.489 235 95 5 33 255 31 258 1.97e-70 220
MsaG031551 AT3G09600.3 49.339 227 92 3 68 282 5 220 3.29e-64 202
MsaG031551 AT3G09600.8 49.339 227 92 3 68 282 5 220 3.29e-64 202
MsaG031551 AT3G09600.5 50.230 217 85 3 68 272 5 210 4.40e-62 197
MsaG031551 AT3G09600.9 50.230 217 85 3 68 272 5 210 4.40e-62 197
MsaG031551 AT1G01520.5 41.216 148 82 2 137 281 55 200 3.79e-29 110
MsaG031551 AT5G37260.1 53.913 115 46 2 30 137 16 130 1.49e-26 106
MsaG031551 AT5G17300.1 53.608 97 37 1 35 123 40 136 5.23e-25 103
MsaG031551 AT1G18330.1 53.191 94 36 1 39 124 39 132 1.08e-23 99.8
MsaG031551 AT1G01060.4 55.844 77 34 0 32 108 6 82 1.64e-23 101
MsaG031551 AT1G01060.8 55.844 77 34 0 32 108 6 82 1.73e-23 100
MsaG031551 AT1G01060.2 55.844 77 34 0 32 108 6 82 1.73e-23 100
MsaG031551 AT1G01060.3 55.844 77 34 0 32 108 6 82 1.73e-23 100
MsaG031551 AT1G01060.1 55.844 77 34 0 32 108 6 82 1.73e-23 100
MsaG031551 AT1G01060.7 55.844 77 34 0 32 108 6 82 1.73e-23 100
MsaG031551 AT3G10113.1 53.191 94 36 1 39 124 54 147 1.84e-23 99.0
MsaG031551 AT1G18330.2 53.191 94 36 1 39 124 65 158 2.10e-23 99.4
MsaG031551 AT2G46830.1 62.857 70 26 0 31 100 5 74 2.64e-23 100

Find 68 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTAAATGCTCAGATGCTTC+TGG 0.201836 6:-29465394 None:intergenic
CAGAAACCTTCTGGCGGGTT+CGG 0.236144 6:-29458767 None:intergenic
TCACCAACCGGCCGCACTTT+TGG 0.263568 6:-29464546 None:intergenic
GTACGGCTTCCTGATCTTCT+TGG 0.264852 6:-29458861 None:intergenic
GTAAAGATTATTACCACTTT+TGG 0.287124 6:-29464015 None:intergenic
CTTACATGATCCTCAAAATC+TGG 0.290423 6:-29465708 None:intergenic
TAACCAAGTCTAGAGAAAAT+TGG 0.315233 6:+29458888 MsaT031551.1:CDS
TCAAGAAACTTGTCATGTTC+AGG 0.315318 6:-29458917 None:intergenic
AGTATGGCTCTACCGGGTTT+TGG 0.320173 6:+29458803 MsaT031551.1:CDS
CAAAATACCATGTAACAAAT+TGG 0.326425 6:-29464271 None:intergenic
TGAACACTGTGGTGTCTTCC+TGG 0.339021 6:+29464226 MsaT031551.1:CDS
GGATCCAGGCAGAAACCTTC+TGG 0.358407 6:-29458776 None:intergenic
TGTCCAGGTTTGACCGTGAT+TGG 0.360886 6:+29462173 MsaT031551.1:intron
CTGCAAGAATTATTCACCTT+TGG 0.363429 6:-29464507 None:intergenic
CAAAACACCAATTTGTTACA+TGG 0.379861 6:+29464264 MsaT031551.1:CDS
TTGTCTCTAGATCAACTTCA+TGG 0.389933 6:-29466614 None:intergenic
CCTGTACTCGGACAATTAAC+AGG 0.396000 6:+29464120 MsaT031551.1:CDS
ATCTGGGCTAGTTAAATTGA+TGG 0.398314 6:-29465691 None:intergenic
AGAAACCTTCTGGCGGGTTC+GGG 0.417308 6:-29458766 None:intergenic
CGACGAGTTCACGGCGGCGA+AGG 0.419440 6:-29458828 None:intergenic
TCTCAAGTATACAACTTCAT+TGG 0.420911 6:+29465358 MsaT031551.1:CDS
GACACCACAGTGTTCATAAT+AGG 0.421614 6:-29464219 None:intergenic
GGCTAGTTAAATTGATGGAC+AGG 0.422321 6:-29465686 None:intergenic
TCGTCGTGTATCGGTCTATC+TGG 0.428375 6:-29466651 None:intergenic
TTCAATGGCTCGTCGTGTAT+CGG 0.434781 6:-29466660 None:intergenic
TCCGACCAGTATGGCTCTAC+CGG 0.437514 6:+29458796 MsaT031551.1:CDS
GTAAATGCTCAGATGCTTCT+GGG 0.441602 6:-29465393 None:intergenic
CTAGACTTGGTTATCGTGTA+CGG 0.446568 6:-29458878 None:intergenic
GACGAGTTCACGGCGGCGAA+GGG 0.446989 6:-29458827 None:intergenic
AAAACCCGGTAGAGCCATAC+TGG 0.447620 6:-29458801 None:intergenic
CTGCCTGGATCCGACCAGTA+TGG 0.454089 6:+29458787 MsaT031551.1:CDS
AGGAGTTTCAAGCATTGGTA+TGG 0.456828 6:-29464199 None:intergenic
GAGCCATACTGGTCGGATCC+AGG 0.459962 6:-29458790 None:intergenic
TGGATCGAAGACTGTTATAC+AGG 0.460170 6:+29462216 MsaT031551.1:CDS
TCACCGGCTTTGGTTGAACC+TGG 0.467895 6:+29464156 MsaT031551.1:CDS
ATAATAGGAGTTTCAAGCAT+TGG 0.470835 6:-29464204 None:intergenic
TGATTATTAGATTCACCAAC+CGG 0.477865 6:-29464558 None:intergenic
GGCGTCTTCCGACGAGTTCA+CGG 0.478542 6:-29458837 None:intergenic
ATACCGTCTCAACATCTATA+CGG 0.480443 6:-29465435 None:intergenic
AAGACGCCTCCAAGAAGATC+AGG 0.493667 6:+29458852 MsaT031551.1:CDS
CGGCTTCCTGATCTTCTTGG+AGG 0.501225 6:-29458858 None:intergenic
CCTGTTAATTGTCCGAGTAC+AGG 0.516601 6:-29464120 None:intergenic
TTTCTAAAAGTTCAGAAGAG+TGG 0.517774 6:+29463924 MsaT031551.1:CDS
GGGCGGAGGAAGATGTTCAT+TGG 0.526400 6:-29463949 None:intergenic
GCGGCGAAGGGGCCAAAACC+CGG 0.527831 6:-29458815 None:intergenic
TAAGTAGTAGCACTCTTCAA+TGG 0.528602 6:-29466675 None:intergenic
CCCGCCAGAAGGTTTCTGCC+TGG 0.536343 6:+29458772 MsaT031551.1:CDS
TTACATGATCCTCAAAATCT+GGG 0.558308 6:-29465707 None:intergenic
TGTCTCTAGATCAACTTCAT+GGG 0.559818 6:-29466613 None:intergenic
ACTCCAAAAGTGCGGCCGGT+TGG 0.560859 6:+29464543 MsaT031551.1:CDS
TATTTGACAGCTCCTGTACT+CGG 0.564059 6:+29464108 MsaT031551.1:intron
ATTAAAGTCTTGCCTCTCAA+AGG 0.565495 6:-29464597 None:intergenic
TTGCAACGTGTGGTTTGACC+AGG 0.572237 6:-29464244 None:intergenic
TTTACAGAAACTCAAACAGA+TGG 0.572259 6:+29465411 MsaT031551.1:CDS
AAGTACTCCAAAAGTGCGGC+CGG 0.577622 6:+29464539 MsaT031551.1:CDS
AATAAAAGCCTTCCTTTGAG+AGG 0.579191 6:+29464585 MsaT031551.1:CDS
AAGTCTTGCCTCTCAAAGGA+AGG 0.579991 6:-29464593 None:intergenic
TATCCAGGTTCAACCAAAGC+CGG 0.583147 6:-29464159 None:intergenic
CCAGGCAGAAACCTTCTGGC+GGG 0.583171 6:-29458772 None:intergenic
CCGACCAGTATGGCTCTACC+GGG 0.599871 6:+29458797 MsaT031551.1:CDS
CTTCGCCGCCGTGAACTCGT+CGG 0.610061 6:+29458829 MsaT031551.1:CDS
CCCGGTAGAGCCATACTGGT+CGG 0.614220 6:-29458797 None:intergenic
TCCAGGCAGAAACCTTCTGG+CGG 0.614423 6:-29458773 None:intergenic
ACGAGTTCACGGCGGCGAAG+GGG 0.627667 6:-29458826 None:intergenic
GGACCGTATAGATGTTGAGA+CGG 0.661522 6:+29465432 MsaT031551.1:CDS
CTGAAAGTACTCCAAAAGTG+CGG 0.702417 6:+29464535 MsaT031551.1:CDS
GTCTTCCGACGAGTTCACGG+CGG 0.755866 6:-29458834 None:intergenic
AACTCCTATTATGAACACTG+TGG 0.802902 6:+29464215 MsaT031551.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 29458752 29466698 29458752 ID=MsaG031551
Chr6 mRNA 29458752 29466698 29458752 ID=MsaT031551.1;Parent=MsaG031551
Chr6 exon 29458752 29458951 29458752 ID=MsaT031551.1.exon1;Parent=MsaT031551.1
Chr6 CDS 29458752 29458951 29458752 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Chr6 exon 29462180 29462237 29462180 ID=MsaT031551.1.exon2;Parent=MsaT031551.1
Chr6 CDS 29462180 29462237 29462180 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Chr6 exon 29463900 29464023 29463900 ID=MsaT031551.1.exon3;Parent=MsaT031551.1
Chr6 CDS 29463900 29464023 29463900 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Chr6 exon 29464118 29464285 29464118 ID=MsaT031551.1.exon4;Parent=MsaT031551.1
Chr6 CDS 29464118 29464285 29464118 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Chr6 exon 29464505 29464606 29464505 ID=MsaT031551.1.exon5;Parent=MsaT031551.1
Chr6 CDS 29464505 29464606 29464505 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Chr6 exon 29465344 29465453 29465344 ID=MsaT031551.1.exon6;Parent=MsaT031551.1
Chr6 CDS 29465344 29465453 29465344 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Chr6 exon 29465666 29465725 29465666 ID=MsaT031551.1.exon7;Parent=MsaT031551.1
Chr6 CDS 29465666 29465725 29465666 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Chr6 exon 29466597 29466698 29466597 ID=MsaT031551.1.exon8;Parent=MsaT031551.1
Chr6 CDS 29466597 29466698 29466597 ID=cds.MsaT031551.1;Parent=MsaT031551.1
Gene Sequence

>MsaT031551.1

ATGGTATCCAAAAACCCGAACCCGCCAGAAGGTTTCTGCCTGGATCCGACCAGTATGGCTCTACCGGGTTTTGGCCCCTTCGCCGCCGTGAACTCGTCGGAAGACGCCTCCAAGAAGATCAGGAAGCCGTACACGATAACCAAGTCTAGAGAAAATTGGACTGAACCTGAACATGACAAGTTTCTTGAAGCTCTTCAATTGTTTGACCGTGATTGGAAAAAGATTGAAGCATTTGTTGGATCGAAGACTGTTATACAGATACGTAGCCATGCACAAAAATACTTTCTAAAAGTTCAGAAGAGTGGAGCCAATGAACATCTTCCTCCGCCCAGACCTAAAAGAAAAGCTGCCCATCCCTATCCTCAAAAAGCTTCCAAAAGTGCTCCTGTACTCGGACAATTAACAGGATCTTTTCAATCTTCACCGGCTTTGGTTGAACCTGGATATATAATGAAAAATGAATCCATACCAATGCTTGAAACTCCTATTATGAACACTGTGGTGTCTTCCTGGTCAAACCACACGTTGCAAAACACCAATTTGTTACATGTGCCAAAGGTGAATAATTCTTGCAGTAGCACTGAAAGTACTCCAAAAGTGCGGCCGGTTGGTGAATCTAATAATCAAGTGAATAAAAGCCTTCCTTTGAGAGTTCTTCCAGATTTTTCTCAAGTATACAACTTCATTGGCAGTGTATTTGACCCAGAAGCATCTGAGCATTTACAGAAACTCAAACAGATGGACCGTATAGATGTTGAGACGGTGCTTCTGTTGATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCATAAAAAGCTGCTTTCATCCCATGAAGTTGATCTAGAGACAAACAGCTATCTCAATCCAGATAGACCGATACACGACGAGCCATTGAAGAGTGCTACTACTTAA
Protein sequence

>MsaT031551.1

MVSKNPNPPEGFCLDPTSMALPGFGPFAAVNSSEDASKKIRKPYTITKSRENWTEPEHDKFLEALQLFDRDWKKIEAFVGSKTVIQIRSHAQKYFLKVQKSGANEHLPPPRPKRKAAHPYPQKASKSAPVLGQLTGSFQSSPALVEPGYIMKNESIPMLETPIMNTVVSSWSNHTLQNTNLLHVPKVNNSCSSTESTPKVRPVGESNNQVNKSLPLRVLPDFSQVYNFIGSVFDPEASEHLQKLKQMDRIDVETVLLLMRNLSINLTSPDFEDHKKLLSSHEVDLETNSYLNPDRPIHDEPLKSATT*